2YHO	Ligase	date	May 04, 2011
title	The Idol-Ube2d Complex Mediates Sterol-Dependent Degradation Ldl Receptor
authors	L.Fairall, B.T.Goult, C.J.Millard, P.Tontonoz, J.W.R.Schwabe
compound		source
Molecule: E3 Ubiquitin-Protein Ligase Mylip Chain: A, C, E, G Fragment: Ring, Residues 369-445 Synonym: Inducible Degrader Of The Ldl-Receptor, Idol, Myos Regulatory Light Chain Interacting Protein, Mir; Ec: 6.3.2.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Rosetta Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex
Molecule: Ubiquitin-Conjugating Enzyme E2 D1 Chain: B, D, F, H Synonym: Stimulator Of Fe Transport, Sft, Ubc45 Homolog, U Ubiquitin Carrier Protein D1, Ubiquitin-Conjugating Enzyme 1, Ubiquitin-Conjugating Enzyme E2-17 Kda 1, Ubiquitin-Prot D1, Ube2d1; Ec: 6.3.2.19 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Rosetta Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex
symmetry	Space Group: P 1 21 1	R_factor 0.186 R_Free 0.233
crystal cell	length a length b length c angle alpha angle beta angle gamma 57.690 137.870 63.750 90.00 106.39 90.00
method	X-Ray Diffraction	resolution	2.10 Å
ligand	ACT, ZN	enzyme	Ligase E.C.6.3.2 BRENDA
note	2YHO is a representative structure
Gene Ontology	Chain Function Process Component H, F, D, B
Primary reference	The IDOL-UBE2D complex mediates sterol-dependent degradation of the LDL receptor., Zhang L, Fairall L, Goult BT, Calkin AC, Hong C, Millard CJ, Tontonoz P, Schwabe JW, Genes Dev. 2011 Jun 15;25(12):1262-74. PMID:21685362

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (149 Kb) [Save to disk] Biological Unit Coordinates (2yho.pdb1.gz) 38 Kb Biological Unit Coordinates (2yho.pdb2.gz) 38 Kb Biological Unit Coordinates (2yho.pdb3.gz) 37 Kb Biological Unit Coordinates (2yho.pdb4.gz) 38 Kb LPC: Ligand-Protein Contacts for 2YHO CSU: Contacts of Structural Units for 2YHO Structure Factors (2944 Kb) Retrieve 2YHO in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2YHO from S2C, [Save to disk] Re-refined 2yho structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2YHO in 3D

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Visual 3D analysis of 2YHO

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2YHO, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2yho_H] [2yho_D] [2yho_B] [2yho_C] [2yho] [2yho_A] [2yho_G] [2yho_E] [2yho_F] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 2YHO: [RING] [UBCc ] by SMART

Other resources with information on 2YHO

Community annotation for 2YHO at PDBWiki (http://pdbwiki.org)

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